Genome-Wide Analysis and Abiotic Stress-Responsive Patterns of <i>COBRA-like</i> Gene Family in <i>Liriodendron chinense</i>
The COBRA gene encodes a plant-specific glycosylphosphatidylinositol (GPI)-anchored protein (GAP), which plays an important role in cell wall cellulose deposition. In this study, a total of 7 <i>COBRA-like</i> (<i>COBL</i>) genes were identified in the genome of the rare and...
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MDPI AG
2023-04-01
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| author | Chen Qiu Jinhui Chen Weihuang Wu Bojun Liao Xueyan Zheng Yong Li Jing Huang Jisen Shi Zhaodong Hao |
| author_facet | Chen Qiu Jinhui Chen Weihuang Wu Bojun Liao Xueyan Zheng Yong Li Jing Huang Jisen Shi Zhaodong Hao |
| author_sort | Chen Qiu |
| collection | DOAJ |
| description | The COBRA gene encodes a plant-specific glycosylphosphatidylinositol (GPI)-anchored protein (GAP), which plays an important role in cell wall cellulose deposition. In this study, a total of 7 <i>COBRA-like</i> (<i>COBL</i>) genes were identified in the genome of the rare and endangered woody plant <i>Liriodendron chinense</i> (<i>L. chinense</i>). Phylogenetic analysis showed that these <i>LcCOBL</i> genes can be divided into two subfamilies, i.e., SF I and II. In the conserved motif analysis of two subfamilies, SF I contained 10 predicted motifs, while SF II contained 4–6 motifs. The tissue-specific expression patterns showed that <i>LcCOBL5</i> was highly expressed in the phloem and xylem, indicating its potential role in cellulose biosynthesis. In addition, the cis-element analysis and abiotic stress transcriptomes showed that three <i>LcCOBLs</i>, <i>LcCOBL3</i>, <i>LcCOBL4</i> and <i>LcCOBL5</i>, transcriptionally responded to abiotic stresses, including cold, drought and heat stress. In particular, the quantitative reverse-transcription PCR (qRT-PCR) analysis further confirmed that the <i>LcCOBL3</i> gene was significantly upregulated in response to cold stress and peaked at 24–48 h, hinting at its potential role in the mechanism of cold resistance in <i>L. chinense</i>. Moreover, GFP-fused LcCOBL2, LcCOBL4 and LcCOBL5 were found to be localized in the cytomembrane. In summary, we expect these results to be beneficial for research on both the functions of <i>LcCOBL</i> genes and resistance breeding in <i>L. chinense</i>. |
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| language | English |
| last_indexed | 2024-03-11T04:37:37Z |
| publishDate | 2023-04-01 |
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| spelling | doaj.art-be486fdf3c3a49d68d2c1c366ea6f6e62023-11-17T20:59:13ZengMDPI AGPlants2223-77472023-04-01128161610.3390/plants12081616Genome-Wide Analysis and Abiotic Stress-Responsive Patterns of <i>COBRA-like</i> Gene Family in <i>Liriodendron chinense</i>Chen Qiu0Jinhui Chen1Weihuang Wu2Bojun Liao3Xueyan Zheng4Yong Li5Jing Huang6Jisen Shi7Zhaodong Hao8State Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, ChinaState Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, ChinaState Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, ChinaState Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, ChinaNational Germplasm Bank of Chinese Fir at Fujian Yangkou Forest Farm, Nanping 353211, ChinaNational Germplasm Bank of Chinese Fir at Fujian Yangkou Forest Farm, Nanping 353211, ChinaJinling Institute of Technology, Nanjing 211169, ChinaState Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, ChinaState Key Laboratory of Tree Genetics and Breeding, Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, ChinaThe COBRA gene encodes a plant-specific glycosylphosphatidylinositol (GPI)-anchored protein (GAP), which plays an important role in cell wall cellulose deposition. In this study, a total of 7 <i>COBRA-like</i> (<i>COBL</i>) genes were identified in the genome of the rare and endangered woody plant <i>Liriodendron chinense</i> (<i>L. chinense</i>). Phylogenetic analysis showed that these <i>LcCOBL</i> genes can be divided into two subfamilies, i.e., SF I and II. In the conserved motif analysis of two subfamilies, SF I contained 10 predicted motifs, while SF II contained 4–6 motifs. The tissue-specific expression patterns showed that <i>LcCOBL5</i> was highly expressed in the phloem and xylem, indicating its potential role in cellulose biosynthesis. In addition, the cis-element analysis and abiotic stress transcriptomes showed that three <i>LcCOBLs</i>, <i>LcCOBL3</i>, <i>LcCOBL4</i> and <i>LcCOBL5</i>, transcriptionally responded to abiotic stresses, including cold, drought and heat stress. In particular, the quantitative reverse-transcription PCR (qRT-PCR) analysis further confirmed that the <i>LcCOBL3</i> gene was significantly upregulated in response to cold stress and peaked at 24–48 h, hinting at its potential role in the mechanism of cold resistance in <i>L. chinense</i>. Moreover, GFP-fused LcCOBL2, LcCOBL4 and LcCOBL5 were found to be localized in the cytomembrane. In summary, we expect these results to be beneficial for research on both the functions of <i>LcCOBL</i> genes and resistance breeding in <i>L. chinense</i>.https://www.mdpi.com/2223-7747/12/8/1616<i>COBL</i>genome-wide analysisgene expressionqRT-PCR |
| spellingShingle | Chen Qiu Jinhui Chen Weihuang Wu Bojun Liao Xueyan Zheng Yong Li Jing Huang Jisen Shi Zhaodong Hao Genome-Wide Analysis and Abiotic Stress-Responsive Patterns of <i>COBRA-like</i> Gene Family in <i>Liriodendron chinense</i> Plants <i>COBL</i> genome-wide analysis gene expression qRT-PCR |
| title | Genome-Wide Analysis and Abiotic Stress-Responsive Patterns of <i>COBRA-like</i> Gene Family in <i>Liriodendron chinense</i> |
| title_full | Genome-Wide Analysis and Abiotic Stress-Responsive Patterns of <i>COBRA-like</i> Gene Family in <i>Liriodendron chinense</i> |
| title_fullStr | Genome-Wide Analysis and Abiotic Stress-Responsive Patterns of <i>COBRA-like</i> Gene Family in <i>Liriodendron chinense</i> |
| title_full_unstemmed | Genome-Wide Analysis and Abiotic Stress-Responsive Patterns of <i>COBRA-like</i> Gene Family in <i>Liriodendron chinense</i> |
| title_short | Genome-Wide Analysis and Abiotic Stress-Responsive Patterns of <i>COBRA-like</i> Gene Family in <i>Liriodendron chinense</i> |
| title_sort | genome wide analysis and abiotic stress responsive patterns of i cobra like i gene family in i liriodendron chinense i |
| topic | <i>COBL</i> genome-wide analysis gene expression qRT-PCR |
| url | https://www.mdpi.com/2223-7747/12/8/1616 |
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